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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTALS OF PEPTIDE DEFORMYLASE FROM PLASMODIUM FALCIPARUM WITH TEN SUBUNITS PER ASYMMETRIC UNIT REVEAL CRITICAL CHARACTERISTICS OF THE ACTIVE SITE FOR DRUG DESIGN
Keywords PDF, MALARIA, PLASMODIUM, DEFORMYLATION, METALLOENZYME, HYDROLASE
Experiment X-ray diffraction
Number of Models  1


   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  

PDB   1JYM     released     available     available     Quaternary Structure Server  


Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   PEPTIDE DEFORMYLASE  A 179 1463 24
2  Protein   PEPTIDE DEFORMYLASE  B 179 1463 24
3  Protein   PEPTIDE DEFORMYLASE  C 168 1370 24
4  Protein   PEPTIDE DEFORMYLASE  D 173 1411 24
5  Protein   PEPTIDE DEFORMYLASE  E 176 1434 24
6  Protein   PEPTIDE DEFORMYLASE  F 172 1402 24
7  Protein   PEPTIDE DEFORMYLASE  G 172 1401 24
8  Protein   PEPTIDE DEFORMYLASE  H 173 1411 24
9  Protein   PEPTIDE DEFORMYLASE  I 172 1401 24
10  Protein   PEPTIDE DEFORMYLASE  J 172 1401 24
11  Ligand   PEPTIDE DEFORMYLASE  A 1 0 1
12  Ligand   PEPTIDE DEFORMYLASE  B 1 0 1
13  Ligand   PEPTIDE DEFORMYLASE  C 1 0 1
14  Ligand   PEPTIDE DEFORMYLASE  D 1 0 1
15  Ligand   PEPTIDE DEFORMYLASE  E 1 0 1
16  Ligand   PEPTIDE DEFORMYLASE  F 1 0 1
17  Ligand   PEPTIDE DEFORMYLASE  G 1 0 1
18  Ligand   PEPTIDE DEFORMYLASE  H 1 0 1
19  Ligand   PEPTIDE DEFORMYLASE  I 1 0 1
20  Ligand   PEPTIDE DEFORMYLASE  J 1 0 1
21 Water     177 0 177
total       1923 14157 427

Proteins
Unit 1 ASP63 GLU64 ILE65 LYS66 ILE67 VAL68 LYS69 TYR70 PRO71 ASP72 PRO73 ILE74 LEU75 ARG76 ARG77 ARG78 SER79 GLU80 VAL81 THR82 ASN83 PHE84 ASP85 ASP86 ASN87 LEU88 LYS89 ARG90 VAL91 VAL92 ARG93 LYS94 MSE95 PHE96 ASP97 ILE98 MSE99 TYR100 GLU101 SER102 LYS103 GLY104 ILE105 GLY106 LEU107 SER108 ALA109 PRO110 GLN111 VAL112 ASN113 ILE114 SER115 LYS116 ARG117 ILE118 ILE119 VAL120 TRP121 ASN122 ALA123 LEU124 TYR125 GLU126 LYS127 ARG128 LYS129 GLU130 GLU131 ASN132 GLU133 ARG134 ILE135 PHE136 ILE137 ASN138 PRO139 SER140 ILE141 VAL142 GLU143 GLN144 SER145 LEU146 VAL147 LYS148 LEU149 LYS150 LEU151 ILE152 GLU153 GLY154 CYS155 LEU156 SER157 PHE158 GLY159 ILE160 GLU161 GLY162 LYS163 VAL164 GLU165 ARG166 PRO167 SER168 ILE169 VAL170 SER171 ILE172 SER173 TYR174 TYR175 ASP176 ILE177 ASN178 GLY179 TYR180 LYS181 HIS182 LEU183 LYS184 ILE185 LEU186 LYS187 GLY188 ILE189 HIS190 SER191 ARG192 ILE193 PHE194 GLN195 HIS196 GLU197 PHE198 ASP199 HIS200 LEU201 ASN202 GLY203 THR204 LEU205 PHE206 ILE207 ASP208 LYS209 MSE210 THR211 GLN212 VAL213 ASP214 LYS215 LYS216 LYS217 VAL218 ARG219 PRO220 LYS221 LEU222 ASN223 GLU224 LEU225 ILE226 ARG227 ASP228 TYR229 LYS230 ALA231 THR232 HIS233 SER234 GLU235 GLU236 PRO237 LEU238 GLU239 HIS240 HIS241
Unit 2 ASP63 GLU64 ILE65 LYS66 ILE67 VAL68 LYS69 TYR70 PRO71 ASP72 PRO73 ILE74 LEU75 ARG76 ARG77 ARG78 SER79 GLU80 VAL81 THR82 ASN83 PHE84 ASP85 ASP86 ASN87 LEU88 LYS89 ARG90 VAL91 VAL92 ARG93 LYS94 MSE95 PHE96 ASP97 ILE98 MSE99 TYR100 GLU101 SER102 LYS103 GLY104 ILE105 GLY106 LEU107 SER108 ALA109 PRO110 GLN111 VAL112 ASN113 ILE114 SER115 LYS116 ARG117 ILE118 ILE119 VAL120 TRP121 ASN122 ALA123 LEU124 TYR125 GLU126 LYS127 ARG128 LYS129 GLU130 GLU131 ASN132 GLU133 ARG134 ILE135 PHE136 ILE137 ASN138 PRO139 SER140 ILE141 VAL142 GLU143 GLN144 SER145 LEU146 VAL147 LYS148 LEU149 LYS150 LEU151 ILE152 GLU153 GLY154 CYS155 LEU156 SER157 PHE158 GLY159 ILE160 GLU161 GLY162 LYS163 VAL164 GLU165 ARG166 PRO167 SER168 ILE169 VAL170 SER171 ILE172 SER173 TYR174 TYR175 ASP176 ILE177 ASN178 GLY179 TYR180 LYS181 HIS182 LEU183 LYS184 ILE185 LEU186 LYS187 GLY188 ILE189 HIS190 SER191 ARG192 ILE193 PHE194 GLN195 HIS196 GLU197 PHE198 ASP199 HIS200 LEU201 ASN202 GLY203 THR204 LEU205 PHE206 ILE207 ASP208 LYS209 MSE210 THR211 GLN212 VAL213 ASP214 LYS215 LYS216 LYS217 VAL218 ARG219 PRO220 LYS221 LEU222 ASN223 GLU224 LEU225 ILE226 ARG227 ASP228 TYR229 LYS230 ALA231 THR232 HIS233 SER234 GLU235 GLU236 PRO237 LEU238 GLU239 HIS240 HIS241
Unit 3 GLU64 ILE65 LYS66 ILE67 VAL68 LYS69 TYR70 PRO71 ASP72 PRO73 ILE74 LEU75 ARG76 ARG77 ARG78 SER79 GLU80 VAL81 THR82 ASN83 PHE84 ASP85 ASP86 ASN87 LEU88 LYS89 ARG90 VAL91 VAL92 ARG93 LYS94 MSE95 PHE96 ASP97 ILE98 MSE99 TYR100 GLU101 SER102 LYS103 GLY104 ILE105 GLY106 LEU107 SER108 ALA109 PRO110 GLN111 VAL112 ASN113 ILE114 SER115 LYS116 ARG117 ILE118 ILE119 VAL120 TRP121 ASN122 ALA123 LEU124 TYR125 GLU126 LYS127 ARG128 LYS129 GLU130 GLU131 ASN132 GLU133 ARG134 ILE135 PHE136 ILE137 ASN138 PRO139 SER140 ILE141 VAL142 GLU143 GLN144 SER145 LEU146 VAL147 LYS148 LEU149 LYS150 LEU151 ILE152 GLU153 GLY154 CYS155 LEU156 SER157 PHE158 GLY159 ILE160 GLU161 GLY162 LYS163 VAL164 GLU165 ARG166 PRO167 SER168 ILE169 VAL170 SER171 ILE172 SER173 TYR174 TYR175 ASP176 ILE177 ASN178 GLY179 TYR180 LYS181 HIS182 LEU183 LYS184 ILE185 LEU186 LYS187 GLY188 ILE189 HIS190 SER191 ARG192 ILE193 PHE194 GLN195 HIS196 GLU197 PHE198 ASP199 HIS200 LEU201 ASN202 GLY203 THR204 LEU205 PHE206 ILE207 ASP208 LYS209 MSE210 THR211 GLN212 VAL213 ASP214 LYS215 LYS216 LYS217 VAL218 ARG219 PRO220 LYS221 LEU222 ASN223 GLU224 LEU225 ILE226 ARG227 ASP228 TYR229 LYS230 ALA231
Unit 4 GLU64 ILE65 LYS66 ILE67 VAL68 LYS69 TYR70 PRO71 ASP72 PRO73 ILE74 LEU75 ARG76 ARG77 ARG78 SER79 GLU80 VAL81 THR82 ASN83 PHE84 ASP85 ASP86 ASN87 LEU88 LYS89 ARG90 VAL91 VAL92 ARG93 LYS94 MSE95 PHE96 ASP97 ILE98 MSE99 TYR100 GLU101 SER102 LYS103 GLY104 ILE105 GLY106 LEU107 SER108 ALA109 PRO110 GLN111 VAL112 ASN113 ILE114 SER115 LYS116 ARG117 ILE118 ILE119 VAL120 TRP121 ASN122 ALA123 LEU124 TYR125 GLU126 LYS127 ARG128 LYS129 GLU130 GLU131 ASN132 GLU133 ARG134 ILE135 PHE136 ILE137 ASN138 PRO139 SER140 ILE141 VAL142 GLU143 GLN144 SER145 LEU146 VAL147 LYS148 LEU149 LYS150 LEU151 ILE152 GLU153 GLY154 CYS155 LEU156 SER157 PHE158 GLY159 ILE160 GLU161 GLY162 LYS163 VAL164 GLU165 ARG166 PRO167 SER168 ILE169 VAL170 SER171 ILE172 SER173 TYR174 TYR175 ASP176 ILE177 ASN178 GLY179 TYR180 LYS181 HIS182 LEU183 LYS184 ILE185 LEU186 LYS187 GLY188 ILE189 HIS190 SER191 ARG192 ILE193 PHE194 GLN195 HIS196 GLU197 PHE198 ASP199 HIS200 LEU201 ASN202 GLY203 THR204 LEU205 PHE206 ILE207 ASP208 LYS209 MSE210 THR211 GLN212 VAL213 ASP214 LYS215 LYS216 LYS217 VAL218 ARG219 PRO220 LYS221 LEU222 ASN223 GLU224 LEU225 ILE226 ARG227 ASP228 TYR229 LYS230 ALA231 THR232 HIS233 SER234 GLU235 GLU236
Unit 5 ASP63 GLU64 ILE65 LYS66 ILE67 VAL68 LYS69 TYR70 PRO71 ASP72 PRO73 ILE74 LEU75 ARG76 ARG77 ARG78 SER79 GLU80 VAL81 THR82 ASN83 PHE84 ASP85 ASP86 ASN87 LEU88 LYS89 ARG90 VAL91 VAL92 ARG93 LYS94 MSE95 PHE96 ASP97 ILE98 MSE99 TYR100 GLU101 SER102 LYS103 GLY104 ILE105 GLY106 LEU107 SER108 ALA109 PRO110 GLN111 VAL112 ASN113 ILE114 SER115 LYS116 ARG117 ILE118 ILE119 VAL120 TRP121 ASN122 ALA123 LEU124 TYR125 GLU126 LYS127 ARG128 LYS129 GLU130 GLU131 ASN132 GLU133 ARG134 ILE135 PHE136 ILE137 ASN138 PRO139 SER140 ILE141 VAL142 GLU143 GLN144 SER145 LEU146 VAL147 LYS148 LEU149 LYS150 LEU151 ILE152 GLU153 GLY154 CYS155 LEU156 SER157 PHE158 GLY159 ILE160 GLU161 GLY162 LYS163 VAL164 GLU165 ARG166 PRO167 SER168 ILE169 VAL170 SER171 ILE172 SER173 TYR174 TYR175 ASP176 ILE177 ASN178 GLY179 TYR180 LYS181 HIS182 LEU183 LYS184 ILE185 LEU186 LYS187 GLY188 ILE189 HIS190 SER191 ARG192 ILE193 PHE194 GLN195 HIS196 GLU197 PHE198 ASP199 HIS200 LEU201 ASN202 GLY203 THR204 LEU205 PHE206 ILE207 ASP208 LYS209 MSE210 THR211 GLN212 VAL213 ASP214 LYS215 LYS216 LYS217 VAL218 ARG219 PRO220 LYS221 LEU222 ASN223 GLU224 LEU225 ILE226 ARG227 ASP228 TYR229 LYS230 ALA231 THR232 HIS233 SER234 GLU235 GLU236 PRO237 LEU238
Unit 6 GLU64 ILE65 LYS66 ILE67 VAL68 LYS69 TYR70 PRO71 ASP72 PRO73 ILE74 LEU75 ARG76 ARG77 ARG78 SER79 GLU80 VAL81 THR82 ASN83 PHE84 ASP85 ASP86 ASN87 LEU88 LYS89 ARG90 VAL91 VAL92 ARG93 LYS94 MSE95 PHE96 ASP97 ILE98 MSE99 TYR100 GLU101 SER102 LYS103 GLY104 ILE105 GLY106 LEU107 SER108 ALA109 PRO110 GLN111 VAL112 ASN113 ILE114 SER115 LYS116 ARG117 ILE118 ILE119 VAL120 TRP121 ASN122 ALA123 LEU124 TYR125 GLU126 LYS127 ARG128 LYS129 GLU130 GLU131 ASN132 GLU133 ARG134 ILE135 PHE136 ILE137 ASN138 PRO139 SER140 ILE141 VAL142 GLU143 GLN144 SER145 LEU146 VAL147 LYS148 LEU149 LYS150 LEU151 ILE152 GLU153 GLY154 CYS155 LEU156 SER157 PHE158 GLY159 ILE160 GLU161 GLY162 LYS163 VAL164 GLU165 ARG166 PRO167 SER168 ILE169 VAL170 SER171 ILE172 SER173 TYR174 TYR175 ASP176 ILE177 ASN178 GLY179 TYR180 LYS181 HIS182 LEU183 LYS184 ILE185 LEU186 LYS187 GLY188 ILE189 HIS190 SER191 ARG192 ILE193 PHE194 GLN195 HIS196 GLU197 PHE198 ASP199 HIS200 LEU201 ASN202 GLY203 THR204 LEU205 PHE206 ILE207 ASP208 LYS209 MSE210 THR211 GLN212 VAL213 ASP214 LYS215 LYS216 LYS217 VAL218 ARG219 PRO220 LYS221 LEU222 ASN223 GLU224 LEU225 ILE226 ARG227 ASP228 TYR229 LYS230 ALA231 THR232 HIS233 SER234 GLU235
Unit 7 ASP63 GLU64 ILE65 LYS66 ILE67 VAL68 LYS69 TYR70 PRO71 ASP72 PRO73 ILE74 LEU75 ARG76 ARG77 ARG78 SER79 GLU80 VAL81 THR82 ASN83 PHE84 ASP85 ASP86 ASN87 LEU88 LYS89 ARG90 VAL91 VAL92 ARG93 LYS94 MSE95 PHE96 ASP97 ILE98 MSE99 TYR100 GLU101 SER102 LYS103 GLY104 ILE105 GLY106 LEU107 SER108 ALA109 PRO110 GLN111 VAL112 ASN113 ILE114 SER115 LYS116 ARG117 ILE118 ILE119 VAL120 TRP121 ASN122 ALA123 LEU124 TYR125 GLU126 LYS127 ARG128 LYS129 GLU130 GLU131 ASN132 GLU133 ARG134 ILE135 PHE136 ILE137 ASN138 PRO139 SER140 ILE141 VAL142 GLU143 GLN144 SER145 LEU146 VAL147 LYS148 LEU149 LYS150 LEU151 ILE152 GLU153 GLY154 CYS155 LEU156 SER157 PHE158 GLY159 ILE160 GLU161 GLY162 LYS163 VAL164 GLU165 ARG166 PRO167 SER168 ILE169 VAL170 SER171 ILE172 SER173 TYR174 TYR175 ASP176 ILE177 ASN178 GLY179 TYR180 LYS181 HIS182 LEU183 LYS184 ILE185 LEU186 LYS187 GLY188 ILE189 HIS190 SER191 ARG192 ILE193 PHE194 GLN195 HIS196 GLU197 PHE198 ASP199 HIS200 LEU201 ASN202 GLY203 THR204 LEU205 PHE206 ILE207 ASP208 LYS209 MSE210 THR211 GLN212 VAL213 ASP214 LYS215 LYS216 LYS217 VAL218 ARG219 PRO220 LYS221 LEU222 ASN223 GLU224 LEU225 ILE226 ARG227 ASP228 TYR229 LYS230 ALA231 THR232 HIS233 SER234
Unit 8 GLU64 ILE65 LYS66 ILE67 VAL68 LYS69 TYR70 PRO71 ASP72 PRO73 ILE74 LEU75 ARG76 ARG77 ARG78 SER79 GLU80 VAL81 THR82 ASN83 PHE84 ASP85 ASP86 ASN87 LEU88 LYS89 ARG90 VAL91 VAL92 ARG93 LYS94 MSE95 PHE96 ASP97 ILE98 MSE99 TYR100 GLU101 SER102 LYS103 GLY104 ILE105 GLY106 LEU107 SER108 ALA109 PRO110 GLN111 VAL112 ASN113 ILE114 SER115 LYS116 ARG117 ILE118 ILE119 VAL120 TRP121 ASN122 ALA123 LEU124 TYR125 GLU126 LYS127 ARG128 LYS129 GLU130 GLU131 ASN132 GLU133 ARG134 ILE135 PHE136 ILE137 ASN138 PRO139 SER140 ILE141 VAL142 GLU143 GLN144 SER145 LEU146 VAL147 LYS148 LEU149 LYS150 LEU151 ILE152 GLU153 GLY154 CYS155 LEU156 SER157 PHE158 GLY159 ILE160 GLU161 GLY162 LYS163 VAL164 GLU165 ARG166 PRO167 SER168 ILE169 VAL170 SER171 ILE172 SER173 TYR174 TYR175 ASP176 ILE177 ASN178 GLY179 TYR180 LYS181 HIS182 LEU183 LYS184 ILE185 LEU186 LYS187 GLY188 ILE189 HIS190 SER191 ARG192 ILE193 PHE194 GLN195 HIS196 GLU197 PHE198 ASP199 HIS200 LEU201 ASN202 GLY203 THR204 LEU205 PHE206 ILE207 ASP208 LYS209 MSE210 THR211 GLN212 VAL213 ASP214 LYS215 LYS216 LYS217 VAL218 ARG219 PRO220 LYS221 LEU222 ASN223 GLU224 LEU225 ILE226 ARG227 ASP228 TYR229 LYS230 ALA231 THR232 HIS233 SER234 GLU235 GLU236
Unit 9 ASP63 GLU64 ILE65 LYS66 ILE67 VAL68 LYS69 TYR70 PRO71 ASP72 PRO73 ILE74 LEU75 ARG76 ARG77 ARG78 SER79 GLU80 VAL81 THR82 ASN83 PHE84 ASP85 ASP86 ASN87 LEU88 LYS89 ARG90 VAL91 VAL92 ARG93 LYS94 MSE95 PHE96 ASP97 ILE98 MSE99 TYR100 GLU101 SER102 LYS103 GLY104 ILE105 GLY106 LEU107 SER108 ALA109 PRO110 GLN111 VAL112 ASN113 ILE114 SER115 LYS116 ARG117 ILE118 ILE119 VAL120 TRP121 ASN122 ALA123 LEU124 TYR125 GLU126 LYS127 ARG128 LYS129 GLU130 GLU131 ASN132 GLU133 ARG134 ILE135 PHE136 ILE137 ASN138 PRO139 SER140 ILE141 VAL142 GLU143 GLN144 SER145 LEU146 VAL147 LYS148 LEU149 LYS150 LEU151 ILE152 GLU153 GLY154 CYS155 LEU156 SER157 PHE158 GLY159 ILE160 GLU161 GLY162 LYS163 VAL164 GLU165 ARG166 PRO167 SER168 ILE169 VAL170 SER171 ILE172 SER173 TYR174 TYR175 ASP176 ILE177 ASN178 GLY179 TYR180 LYS181 HIS182 LEU183 LYS184 ILE185 LEU186 LYS187 GLY188 ILE189 HIS190 SER191 ARG192 ILE193 PHE194 GLN195 HIS196 GLU197 PHE198 ASP199 HIS200 LEU201 ASN202 GLY203 THR204 LEU205 PHE206 ILE207 ASP208 LYS209 MSE210 THR211 GLN212 VAL213 ASP214 LYS215 LYS216 LYS217 VAL218 ARG219 PRO220 LYS221 LEU222 ASN223 GLU224 LEU225 ILE226 ARG227 ASP228 TYR229 LYS230 ALA231 THR232 HIS233 SER234
Unit 10 ASP63 GLU64 ILE65 LYS66 ILE67 VAL68 LYS69 TYR70 PRO71 ASP72 PRO73 ILE74 LEU75 ARG76 ARG77 ARG78 SER79 GLU80 VAL81 THR82 ASN83 PHE84 ASP85 ASP86 ASN87 LEU88 LYS89 ARG90 VAL91 VAL92 ARG93 LYS94 MSE95 PHE96 ASP97 ILE98 MSE99 TYR100 GLU101 SER102 LYS103 GLY104 ILE105 GLY106 LEU107 SER108 ALA109 PRO110 GLN111 VAL112 ASN113 ILE114 SER115 LYS116 ARG117 ILE118 ILE119 VAL120 TRP121 ASN122 ALA123 LEU124 TYR125 GLU126 LYS127 ARG128 LYS129 GLU130 GLU131 ASN132 GLU133 ARG134 ILE135 PHE136 ILE137 ASN138 PRO139 SER140 ILE141 VAL142 GLU143 GLN144 SER145 LEU146 VAL147 LYS148 LEU149 LYS150 LEU151 ILE152 GLU153 GLY154 CYS155 LEU156 SER157 PHE158 GLY159 ILE160 GLU161 GLY162 LYS163 VAL164 GLU165 ARG166 PRO167 SER168 ILE169 VAL170 SER171 ILE172 SER173 TYR174 TYR175 ASP176 ILE177 ASN178 GLY179 TYR180 LYS181 HIS182 LEU183 LYS184 ILE185 LEU186 LYS187 GLY188 ILE189 HIS190 SER191 ARG192 ILE193 PHE194 GLN195 HIS196 GLU197 PHE198 ASP199 HIS200 LEU201 ASN202 GLY203 THR204 LEU205 PHE206 ILE207 ASP208 LYS209 MSE210 THR211 GLN212 VAL213 ASP214 LYS215 LYS216 LYS217 VAL218 ARG219 PRO220 LYS221 LEU222 ASN223 GLU224 LEU225 ILE226 ARG227 ASP228 TYR229 LYS230 ALA231 THR232 HIS233 SER234

Ligands
Unit 11 CO300
Unit 12 CO1300
Unit 13 CO2300
Unit 14 CO3300
Unit 15 CO4300
Unit 16 CO5300
Unit 17 CO6300
Unit 18 CO7300
Unit 19 CO8300
Unit 20 CO9300

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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany